Normalizes peak intensities to the percentage of the maximum intensity in the HPLC-MS map.

pot. predecessor tools	→ MapNormalizer →	pot. successor tools
PeakPickerHiRes	→ MapNormalizer →	any tool operating on MS peak data (in mzML format)

The command line parameters of this tool are:

MapNormalizer -- Normalizes peak intensities in an MS run.
Full documentation: http://www.openms.de/doxygen/release/3.4.1/html/TOPP_MapNormalizer.html
Version: 3.4.1 May 19 2025, 14:24:34, Revision: 8aec8ec
To cite OpenMS:
 + Pfeuffer, J., Bielow, C., Wein, S. et al.. OpenMS 3 enables reproducible analysis of large-scale mass spec
   trometry data. Nat Methods (2024). doi:10.1038/s41592-024-02197-7.

Usage:
  MapNormalizer <options>

Options (mandatory options marked with '*'):
  -in <file>*        Input file  (valid formats: 'mzML')
  -out <file>*       Output file  (valid formats: 'mzML')
                     
Common TOPP options:
  -ini <file>        Use the given TOPP INI file
  -threads <n>       Sets the number of threads allowed to be used by the TOPP tool (default: '1')
  -write_ini <file>  Writes the default configuration file
  --help             Shows options
  --helphelp         Shows all options (including advanced)

INI file documentation of this tool:

Legend:

required parameter

advanced parameter

+MapNormalizerNormalizes peak intensities in an MS run.

version3.4.1 Version of the tool that generated this parameters file.

++1Instance '1' section for 'MapNormalizer'

in input file input file*.mzML

out output file output file*.mzML

log Name of log file (created only when specified)

debug0 Sets the debug level

threads1 Sets the number of threads allowed to be used by the TOPP tool

no_progressfalse Disables progress logging to command linetrue, false

forcefalse Overrides tool-specific checkstrue, false

testfalse Enables the test mode (needed for internal use only)true, false